Works by Chuming Chen

Results: 32

Computational clustering for viral reference proteomes.

Published in:

Bioinformatics, 2016, v. 32, n. 13, p. 2041, doi. 10.1093/bioinformatics/btw110

By:

Chuming Chen;
Hongzhan Huang;
Mazumder, Raja;
Natale, Darren A.;
McGarvey, Peter B.;
Jian Zhang;
Polson, Shawn W.;
Yuqi Wang;
Wu, Cathy H.

Publication type:

Article

A fast Peptide Match service for UniProt Knowledgebase.

Published in:

Bioinformatics, 2013, v. 29, n. 21, p. 2808

By:

Chen, Chuming;
Li, Zhiwen;
Huang, Hongzhan;
Suzek, Baris E.;
Wu, Cathy H.

Publication type:

Article

NLRX1 can counteract innate immune response induced by an external stimulus favoring HBV infection by competitive inhibition of MAVS-RLRs signaling in HepG2-NTCP cells.

Published in:

Therapeutic Advances in Infectious Disease, 2021, v. 8, p. 1, doi. 10.1177/00368504211058036

By:

Qian Jiao;
Wenxiong Xu;
Xiaoyan Guo;
Huiyuan Liu;
Baolin Liao;
Xiang Zhu;
Chuming Chen;
Fangji Yang;
Lina Wu;
Chan Xie;
Liang Peng

Publication type:

Article

Low-to-Moderate Dosage and Short-Term Use of Corticosteroids Benefit Patients With Severe COVID-19 Infections.

Published in:

Frontiers in Microbiology, 2022, v. 13, p. 1, doi. 10.3389/fmicb.2022.953328

By:

Liuqing Yang;
Ling Peng;
Weibo Wu;
Mengli Cao;
Chuming Chen;
Fuxiang Wang;
St. Sauver, Jennifer;
Yingxia Liu

Publication type:

Article

Genome sequencing and transcript analysis of Hemileia vastatrix reveal expression dynamics of candidate effectors dependent on host compatibility.

Published in:

PLoS ONE, 2019, v. 14, n. 4, p. 1, doi. 10.1371/journal.pone.0215598

By:

Porto, Brenda Neves;
Caixeta, Eveline Teixeira;
Mathioni, Sandra Marisa;
Vidigal, Pedro Marcus Pereira;
Zambolim, Laércio;
Zambolim, Eunize Maciel;
Donofrio, Nicole;
Polson, Shawn W.;
Maia, Thiago Andrade;
Chen, Chuming;
Adetunji, Modupe;
Kingham, Brewster;
Dalio, Ronaldo José Durigan;
Resende, Mário Lúcio Vilela de

Publication type:

Article

The novel coronavirus (COVID-19) pneumonia with negative detection of viral ribonucleic acid from nasopharyngeal swabs: a case report.

Published in:

2020

By:

Zhang, Peiyan;
Cai, Zhao;
Wu, Weibo;
Peng, Ling;
Li, Yinfeng;
Chen, Chuming;
Chen, Li;
Li, Jianming;
Cao, Mengli;
Feng, Shiyan;
Jiang, Xiao;
Yuan, Jing;
Liu, Yingxia;
Yang, Liang;
Wang, Fuxiang

Publication type:

journal article

Marine Genomics: A clearing-house for genomic and transcriptomic data of marine organisms.

Published in:

BMC Genomics, 2005, v. 6, p. 34, doi. 10.1186/1471-2164-6-34

By:

McKillen, David J.;
Chen, Yian A.;
Chuming Chen;
Jenny, Matthew J.;
Trent III, Harold F.;
Robalino, Javier;
McLean Jr., David C.;
Gross, Paul S.;
Chapman, Robert W.;
Warr, Gregory W.;
Almeida, Jonas S.

Publication type:

Article

New natural barrigenol-like triterpenoid isolated from the husks of <italic>Xanthoceras sorbifolia</italic> Bunge.

Published in:

Natural Product Research, 2018, v. 32, n. 9, p. 997, doi. 10.1080/14786419.2017.1375916

By:

Wang, Da;
Yu, Bin;
Chen, Chuming;
Duan, Jie;
Di, Donghua;
Xiong, Xin;
Yang, Yiren;
Gao, Huiyuan

Publication type:

Article

AGML Central: web based gel proteomic infrastructure.

Published in:

Bioinformatics, 2005, v. 21, n. 9, p. 1754, doi. 10.1093/bioinformatics/bti246

By:

Romesh Stanislaus;
Chuming Chen;
Jennifer Franklin;
John Arthur;
Jonas S. Almeida

Publication type:

Article

Representative Proteomes: A Stable, Scalable and Unbiased Proteome Set for Sequence Analysis and Functional Annotation.

Published in:

PLoS ONE, 2011, v. 6, n. 4, p. 1, doi. 10.1371/journal.pone.0018910

By:

Chuming Chen;
Natale, Darren A.;
Finn, Robert D.;
Hongzhan Huang;
Jian Zhang;
Wu, Cathy H.;
Mazumder, Raja

Publication type:

Article

Elevated FGF21 secretion, PGC-1α and ketogenic enzyme expression are hallmarks of iron–sulfur cluster depletion in human skeletal muscle.

Published in:

Human Molecular Genetics, 2014, v. 23, n. 1, p. 24, doi. 10.1093/hmg/ddt393

By:

Crooks, Daniel R.;
Natarajan, Thanemozhi G.;
Jeong, Suh Young;
Chen, Chuming;
Park, Sun Young;
Huang, Hongzhan;
Ghosh, Manik C.;
Tong, Wing-Hang;
Haller, Ronald G.;
Wu, Cathy;
Rouault, Tracey A.

Publication type:

Article

Pulmonary fibrosis and its related factors in discharged patients with new corona virus pneumonia: a cohort study.

Published in:

2021

By:

Li, Xiaohe;
Shen, Chenguang;
Wang, Lifei;
Majumder, Sumit;
Zhang, Die;
Deen, M. Jamal;
Li, Yanjie;
Qing, Ling;
Zhang, Ying;
Chen, Chuming;
Zou, Rongrong;
Lan, Jianfeng;
Huang, Ling;
Peng, Cheng;
Zeng, Lijiao;
Liang, Yanhua;
Cao, Mengli;
Yang, Yang;
Yang, Minghui;
Tan, Guoyu

Publication type:

journal article

NLRX1 can counteract innate immune response induced by an external stimulus favoring HBV infection by competitive inhibition of MAVS-RLRs signaling in HepG2-NTCP cells.

Published in:

Science Progress, 2021, v. 104, p. 1, doi. 10.1177/00368504211058036

By:

Jiao, Qian;
Xu, Wenxiong;
Guo, Xiaoyan;
Liu, Huiyuan;
Liao, Baolin;
Zhu, Xiang;
Chen, Chuming;
Yang, Fangji;
Wu, Lina;
Xie, Chan;
Peng, Liang

Publication type:

Article

Protein ontology on the semantic web for knowledge discovery.

Published in:

Scientific Data, 2020, v. 7, n. 1, p. N.PAG, doi. 10.1038/s41597-020-00679-9

By:

Chen, Chuming;
Huang, Hongzhan;
Ross, Karen E.;
Cowart, Julie E.;
Arighi, Cecilia N.;
Wu, Cathy H.;
Natale, Darren A.

Publication type:

Article

Data integration gets 'Sloppy'.

Published in:

2006

By:

Almeida, Jonas S.;
Chuming Chen;
Gorlitsky, Robert;
Stanislaus, Romesh;
Aires-de-Sousa, Marta;
Eleutério, Pedro;
Carriço, João;
Maretzek, António;
Bohn, Andreas;
Chang, Allen;
Fan Zhang;
Mitra, Rahul;
Mills, Gordon B.;
Xiaoshu Wang;
Deus, Helena F.

Publication type:

Letter

Software for pre-processing Illumina nextgeneration sequencing short read sequences.

Published in:

Source Code for Biology & Medicine, 2014, v. 9, n. 1, p. 1, doi. 10.1186/1751-0473-9-8

By:

Chuming Chen;
Khaleel, Sari S.;
Hongzhan Huang;
Wu, Cathy H.

Publication type:

Article

Rejuvenation of the Kuqa Foreland Basin, Northern Flank of the Tarim Basin, Northwest China.

Published in:

International Geology Review, 1994, v. 36, n. 12, p. 1151, doi. 10.1080/00206819409465509

By:

Huafu, Lu;
Howell, David G.;
Dong, Jia;
Dongsheng, Cai;
Shimin, Wu;
Chuming, Chen;
Valin, Zenon C.;
Yangshen, Shi

Publication type:

Article

Paleozoic Plate-Tectonic Evolution of the Tarim and Western Tianshan Regions, Western China.

Published in:

International Geology Review, 1994, v. 36, n. 11, p. 1058, doi. 10.1080/00206819409465504

By:

Yangshen, Shi;
Huafu, Lu;
Dong, Jia;
Dongsheng, Cai;
Shimin, Wu;
Chuming, Chen;
Howell, David G.;
Valin, Zenon C.

Publication type:

Article

Kalpin Transpression Tectonics, Northwestern Tarim Basin, Western China.

Published in:

International Geology Review, 1994, v. 36, n. 10, p. 975, doi. 10.1080/00206819409465499

By:

Huafu, Lu;
Howell, David G.;
Dong, Jia;
Dongsheng, Cai;
Shimin, Wu;
Chuming, Chen;
Yangshen, Shi;
Valin, Zenon C.;
Lirh, Guo

Publication type:

Article

KSFinder--a knowledge graph model for link prediction of novel phosphorylated substrates of kinases.

Published in:

PeerJ, 2023, p. 1, doi. 10.7717/peerj.16164

By:

Anandakrishnan, Manju;
Ross, Karen E.;
Chuming Chen;
Shanker, Vijay;
Cowart, Julie;
Wu, Cathy H.

Publication type:

Article

RESTful API for iPTMnet: a resource for protein post-translational modification network discovery.

Published in:

Database: The Journal of Biological Databases & Curation, 2020, v. 2020, p. 1, doi. 10.1093/database/baz157

By:

Gavali, Sachin;
Cowart, Julie;
Chen, Chuming;
Ross, Karen E;
Arighi, Cecilia;
Wu, Cathy H

Publication type:

Article

PIRSitePredict for protein functional site prediction using position-specific rules.

Published in:

Database: The Journal of Biological Databases & Curation, 2019, v. 2019, p. N.PAG, doi. 10.1093/database/baz026

By:

Chen, Chuming;
Wang, Qinghua;
Huang, Hongzhan;
Vinayaka, Cholanayakanahalli R;
Garavelli, John S;
Arighi, Cecilia N;
Natale, Darren A;
Wu, Cathy H

Publication type:

Article

Community annotation and bioinformatics workforce development in concert—Little Skate Genome Annotation Workshops and Jamborees.

Published in:

Database: The Journal of Biological Databases & Curation, 2012, v. 2012, p. 1, doi. 10.1093/database/bar064

By:

Wang, Qinghua;
Arighi, Cecilia N.;
King, Benjamin L.;
Polson, Shawn W.;
Vincent, James;
Chen, Chuming;
Huang, Hongzhan;
Kingham, Brewster F.;
Page, Shallee T.;
Farnum Rendino, Marc;
Thomas, William Kelley;
Udwary, Daniel W.;
Wu, Cathy H.

Publication type:

Article

An NLR family member X1 mutation (p.Arg707Cys) suppresses hepatitis B virus infection in hepatocytes and favors the interaction of retinoic acid-inducible gene 1 with mitochondrial antiviral signaling protein.

Published in:

Archives of Virology, 2024, v. 169, n. 11, p. 1, doi. 10.1007/s00705-024-06133-0

By:

Jiao, Qian;
Zhu, Shu;
Liao, Baolin;
Liu, Huiyuan;
Guo, Xiaoyan;
Wu, Lina;
Chen, Chuming;
Peng, Liang;
Xie, Chan

Publication type:

Article

NLRX1 can counteract innate immune response induced by an external stimulus favoring HBV infection by competitive inhibition of MAVS-RLRs signaling in HepG2-NTCP cells.

Published in:

Science Progress, 2021, p. 1, doi. 10.1177/00368504211058036

By:

Jiao, Qian;
Xu, Wenxiong;
Guo, Xiaoyan;
Liu, Huiyuan;
Liao, Baolin;
Zhu, Xiang;
Chen, Chuming;
Yang, Fangji;
Wu, Lina;
Xie, Chan;
Peng, Liang

Publication type:

Article

piNET: a versatile web platform for downstream analysis and visualization of proteomics data.

Published in:

Nucleic Acids Research, 2020, v. 48, n. W1, p. W85, doi. 10.1093/nar/gkaa436

By:

Shamsaei, Behrouz;
Chojnacki, Szymon;
Pilarczyk, Marcin;
Najafabadi, Mehdi;
Niu, Wen;
Chen, Chuming;
Ross, Karen;
Matlock, Andrea;
Muhlich, Jeremy;
Chutipongtanate, Somchai;
Zheng, Jie;
Turner, John;
Vidović, Dušica;
Jaffe, Jake;
MacCoss, Michael;
Wu, Cathy;
Pillai, Ajay;
Ma'ayan, Avi;
Schürer, Stephan;
Kouril, Michal

Publication type:

Article

RNA-Seq Analysis of Abdominal Fat in Genetically Fat and Lean Chickens Highlights a Divergence in Expression of Genes Controlling Adiposity, Hemostasis, and Lipid Metabolism.

Published in:

PLoS ONE, 2015, v. 10, n. 10, p. 1, doi. 10.1371/journal.pone.0139549

By:

Resnyk, Christopher W.;
Chen, Chuming;
Huang, Hongzhan;
Wu, Cathy H.;
Simon, Jean;
Le Bihan-Duval, Elisabeth;
Duclos, Michel J.;
Cogburn, Larry A.

Publication type:

Article

Protein Bioinformatics Infrastructure for the Integration and Analysis of Multiple High-Throughput "omics" Data.

Published in:

Advances in Bioinformatics, 2010, p. 1, doi. 10.1155/2010/423589

By:

Chuming Chen;
McGarvey, Peter B.;
Hongzhan Huang;
Wu, Cathy H.

Publication type:

Article

COVID-19 Knowledge Graph from semantic integration of biomedical literature and databases.

Published in:

Bioinformatics, 2021, v. 37, n. 23, p. 4597, doi. 10.1093/bioinformatics/btab694

By:

Chen, Chuming;
Ross, Karen E;
Gavali, Sachin;
Cowart, Julie E;
Wu, Cathy H

Publication type:

Article

Transcriptional profiling of liver during the critical embryo-to-hatchling transition period in the chicken (Gallus gallus).

Published in:

BMC Genomics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12864-018-5080-4

By:

Cogburn, Larry A.;
Trakooljul, Nares;
Chen, Chuming;
Huang, Hongzhan;
Wu, Cathy H.;
Carré, Wilfrid;
Wang, Xiaofei;
White III, Harold B.

Publication type:

Article

Protein Ontology (PRO): enhancing and scaling up the representation of protein entities.

Published in:

Nucleic Acids Research, 2017, v. 45, n. D1, p. D339, doi. 10.1093/nar/gkw1075

By:

Natale, Darren A.;
Arighi, Cecilia N.;
Blake, Judith A.;
Bona, Jonathan;
Chuming Chen;
Sheng-Chih Chen;
Christie, Karen R.;
Cowart, Julie;
D’Eustachio, Peter;
Diehl, Alexander D.;
Drabkin, Harold J.;
Duncan, William D.;
Huang, Hongzhan;
Ren, Jia;
Ross, Karen;
Ruttenberg, Alan;
Shamovsky, Veronica;
Smith, Barry;
Qinghua Wang;
Jian Zhang

Publication type:

Article

An Integrated Approach for Analyzing Clinical Genomic Variant Data from Next-Generation Sequencing.

Published in:

Journal of Biomolecular Techniques, 2015, v. 26, n. 1, p. 19, doi. 10.7171/jbt.15-2601-002

By:

Crowgey, Erin L.;
Stabley, Deborah L.;
Chuming Chen;
Hongzhan Huang;
Robbins, Katherine M.;
Polson, Shawn W.;
Sol-Church, Katia;
Wu, Cathy H.

Publication type:

Article